Alternatives and similar repositories for TEffectR

Users that are interested in TEffectR are comparing it to the libraries listed below

• rcastelo / atena
  Analysis of transposable elements
  ☆13Updated 2 weeks ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆41Updated 3 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆32Updated 2 years ago
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆28Updated 6 years ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆44Updated this week
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆59Updated 2 years ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 weeks ago
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆70Updated 2 years ago
• jianhong / trackViewer
  A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
  ☆74Updated this week
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆98Updated last year
• guoweilong / cgmaptools
  toolbox for analysing BS-seq data, advance features in SNV, ASM and DMR
  ☆64Updated last year
• ivanek / Gviz
  This is the Gviz development repository. Gviz plots data and annotation information along genomic coordinates.
  ☆87Updated 9 months ago
• vastgroup / vast-tools
  A toolset for profiling alternative splicing events in RNA-Seq data.
  ☆82Updated 9 months ago
• mhammell-laboratory / TElocal
  A package for quantifying transposable elements at a locus level for RNAseq datasets.
  ☆29Updated 9 months ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆119Updated last month
• hbctraining / Intro-to-rnaseq-hpc-salmon
  ☆50Updated 4 years ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆60Updated 4 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆51Updated 2 years ago
• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆67Updated 6 years ago
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆68Updated 3 months ago
• wyang17 / SQuIRE
  Software for Quantifying Interspersed Repeat Expression
  ☆63Updated 3 years ago
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆26Updated 7 months ago
• SGDDNB / translational_regulation
  Detection of differential translated genes using Ribo-seq
  ☆16Updated 4 years ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆99Updated 11 months ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• smithlabcode / methpipe
  A pipeline for analyzing DNA methylation data from bisulfite sequencing.
  ☆70Updated 3 years ago
• crazyhottommy / pyflow-RNAseq
  RNAseq pipeline based on snakemake
  ☆26Updated 2 years ago
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆45Updated last week
• ISUgenomics / common_analyses
  Repository of common bioinformatics scripts
  ☆39Updated 4 years ago
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆48Updated 2 years ago